2bgw

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{{Seed}}
 
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[[Image:2bgw.png|left|200px]]
 
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==XPF from Aeropyrum pernix, complex with DNA==
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The line below this paragraph, containing "STRUCTURE_2bgw", creates the "Structure Box" on the page.
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<StructureSection load='2bgw' size='340' side='right'caption='[[2bgw]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2bgw]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Aeropyrum_pernix Aeropyrum pernix] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BGW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BGW FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.8&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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{{STRUCTURE_2bgw| PDB=2bgw | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2bgw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bgw OCA], [https://pdbe.org/2bgw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bgw RCSB], [https://www.ebi.ac.uk/pdbsum/2bgw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bgw ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/Q9YC15_AERPE Q9YC15_AERPE]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bg/2bgw_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2bgw ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The XPF/Mus81 structure-specific endonucleases cleave double-stranded DNA (dsDNA) within asymmetric branched DNA substrates and play an essential role in nucleotide excision repair, recombination and genome integrity. We report the structure of an archaeal XPF homodimer alone and bound to dsDNA. Superposition of these structures reveals a large domain movement upon binding DNA, indicating how the (HhH)(2) domain and the nuclease domain are coupled to allow the recognition of double-stranded/single-stranded DNA junctions. We identify two nonequivalent DNA-binding sites and propose a model in which XPF distorts the 3' flap substrate in order to engage both binding sites and promote strand cleavage. The model rationalises published biochemical data and implies a novel role for the ERCC1 subunit of eukaryotic XPF complexes.
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===XPF FROM AEROPYRUM PERNIX, COMPLEX WITH DNA===
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Structure of an XPF endonuclease with and without DNA suggests a model for substrate recognition.,Newman M, Murray-Rust J, Lally J, Rudolf J, Fadden A, Knowles PP, White MF, McDonald NQ EMBO J. 2005 Mar 9;24(5):895-905. Epub 2005 Feb 17. PMID:15719018<ref>PMID:15719018</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 2bgw" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_15719018}}, adds the Publication Abstract to the page
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*[[Endonuclease 3D structures|Endonuclease 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 15719018 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_15719018}}
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__TOC__
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</StructureSection>
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==About this Structure==
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2BGW is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Aeropyrum_pernix Aeropyrum pernix]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BGW OCA].
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==Reference==
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<ref group="xtra">PMID:15719018</ref><references group="xtra"/>
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[[Category: Aeropyrum pernix]]
[[Category: Aeropyrum pernix]]
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[[Category: Fadden, A.]]
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[[Category: Large Structures]]
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[[Category: Knowles, P.]]
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[[Category: Synthetic construct]]
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[[Category: Lally, J.]]
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[[Category: Fadden A]]
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[[Category: Mcdonald, N Q.]]
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[[Category: Knowles PP]]
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[[Category: Murray-Rust, J.]]
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[[Category: Lally J]]
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[[Category: Newman, M.]]
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[[Category: McDonald NQ]]
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[[Category: Rudolf, J.]]
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[[Category: Murray-Rust J]]
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[[Category: White, M F.]]
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[[Category: Newman M]]
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[[Category: Hydrolase]]
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[[Category: Rudolf J]]
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[[Category: Nucleotide excision repair]]
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[[Category: White MF]]
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[[Category: Structure specific endonuclease]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 21:46:35 2009''
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Current revision

XPF from Aeropyrum pernix, complex with DNA

PDB ID 2bgw

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